Variant report

Variant	rs179249
Chromosome Location	chr14:81435199-81435200
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:81434370..81436740-chr14:81683438..81686246,2	MCF-7	breast:
2	chr14:81429871..81432242-chr14:81433461..81436310,2	MCF-7	breast:

Extended variants
information (count: 88 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10149689	0.83[CHB][hapmap];0.90[CHD][hapmap]
rs1016699	0.80[JPT][hapmap]
rs11627934	0.80[JPT][hapmap]
rs11845052	0.93[ASN][1000 genomes]
rs11850464	0.97[ASN][1000 genomes]
rs12050077	0.83[CHB][hapmap];0.90[CHD][hapmap]
rs12050078	0.94[CHB][hapmap];1.00[CHD][hapmap];0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs12050151	0.81[JPT][hapmap]
rs12050278	0.83[CHB][hapmap]
rs12050350	0.94[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs12050416	0.80[JPT][hapmap]
rs12433134	0.80[JPT][hapmap]
rs12434318	0.81[CEU][hapmap];0.80[JPT][hapmap]
rs12437005	0.89[ASN][1000 genomes]
rs12896436	0.81[JPT][hapmap]
rs12896769	0.86[ASN][1000 genomes]
rs17111237	0.81[JPT][hapmap]
rs17111246	0.81[JPT][hapmap]
rs17111256	0.81[JPT][hapmap]
rs17544968	0.93[ASN][1000 genomes]
rs17545038	0.93[ASN][1000 genomes]
rs17545310	0.84[ASN][1000 genomes]
rs179243	0.96[CEU][hapmap];0.94[CHB][hapmap];0.93[CHD][hapmap];0.85[GIH][hapmap];0.82[JPT][hapmap];0.88[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs179245	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs179251	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs179254	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs179257	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1990597	0.92[ASN][1000 genomes]
rs2024427	0.88[CHB][hapmap];0.93[JPT][hapmap];0.92[ASN][1000 genomes]
rs2059719	0.81[JPT][hapmap]
rs2110696	1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs2114705	0.83[CHB][hapmap]
rs2162547	0.81[JPT][hapmap]
rs2195103	0.83[CHB][hapmap];0.90[CHD][hapmap]
rs2217177	0.83[CHB][hapmap];0.90[CHD][hapmap]
rs2217178	0.83[CHB][hapmap]
rs2239610	0.83[CHB][hapmap]
rs2268451	0.83[CHB][hapmap]
rs2268452	0.83[CHB][hapmap]
rs2268457	0.92[ASN][1000 genomes]
rs2268458	0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2268460	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs228119	0.80[JPT][hapmap]
rs2284718	0.99[ASN][1000 genomes]
rs2284719	0.99[ASN][1000 genomes]
rs2284720	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2284722	0.94[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs2284727	0.92[ASN][1000 genomes]
rs2556607	0.80[JPT][hapmap]
rs28850656	0.80[JPT][hapmap]
rs3783945	0.94[ASN][1000 genomes]
rs3783951	0.94[CHB][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs4899780	0.80[JPT][hapmap]
rs4903957	0.94[CHB][hapmap];0.97[CHD][hapmap];0.87[JPT][hapmap]
rs4903958	0.94[CHB][hapmap];0.97[CHD][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs4903959	0.90[ASN][1000 genomes]
rs5002906	0.94[CHB][hapmap];0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs55945219	0.93[ASN][1000 genomes]
rs59431750	0.96[ASN][1000 genomes]
rs59711583	0.93[ASN][1000 genomes]
rs6574609	0.80[JPT][hapmap]
rs7140452	0.80[JPT][hapmap]
rs7154269	0.82[CHB][hapmap]
rs724169	0.93[ASN][1000 genomes]
rs726018	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs726020	0.95[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72693057	0.99[ASN][1000 genomes]
rs72693068	0.91[ASN][1000 genomes]
rs72693069	0.91[ASN][1000 genomes]
rs72693070	0.91[ASN][1000 genomes]
rs72693072	0.91[ASN][1000 genomes]
rs72693073	0.91[ASN][1000 genomes]
rs72693075	0.95[ASN][1000 genomes]
rs72693078	0.92[ASN][1000 genomes]
rs72693080	0.92[ASN][1000 genomes]
rs72693090	0.93[ASN][1000 genomes]
rs72693093	0.92[ASN][1000 genomes]
rs72693096	0.93[ASN][1000 genomes]
rs74064796	0.93[ASN][1000 genomes]
rs759919	0.80[JPT][hapmap]
rs768359	0.80[JPT][hapmap]
rs8022600	0.82[CHB][hapmap]
rs917985	0.87[ASN][1000 genomes]
rs929630	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869348	chr14:80921098-81535754	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv2761847	chr14:81392124-81453137	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a
3	nsv456346	chr14:81399692-81448382	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a
4	nsv565291	chr14:81399692-81448382	Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs179249	C14orf145	cis	cerebellum	SCAN
rs179249	GSTZ1	cis	cerebellum	SCAN
rs179249	C14orf145	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:81433000-81436200	Genic enhancers	Thymus	Thymus
2	chr14:81434000-81442600	Genic enhancers	Dnd41	blood
3	chr14:81434400-81436400	Strong transcription	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links